|
| Status |
Public on Feb 16, 2012 |
| Title |
Tumor ID 16 |
| Sample type |
RNA |
| |
|
| Source name |
glioma
|
| Organism |
Homo sapiens |
| Characteristics |
tissue type: frozen tissue for primary tumor
cell type: glioma
status: CIMP+
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNA was extracted using Agencourt RNAdvance Tissue Kit according to the manufacturer's instructions.
|
| Label |
Biotin
|
| Label protocol |
200 ng total RNA converted to cRNA using Affymetrix GeneChip®3' IVT Kit and in vitro transcription resulting into biotin-labeled cRNA, fragmented prior to hybridization (Affymetrix Expression Analysis Technical Manual, as described).
|
| |
|
| Hybridization protocol |
10 ug of cDNA was hybridized for 16 hr to the Affymetrix array as described in the Expression Analysis Technical Manual. GeneChips were washed and stained in the Affymetrix Fluidics Station FS450.
|
| Scan protocol |
GeneChips were scanned using Affymetrix GeneArray scanner 7G.
|
| Description |
mskcc bank number s24
|
| Data processing |
data was normalized and analyzed using partek software and R packages. Specifically log2 transformation was used for data normalization.
|
| |
|
| Submission date |
Jun 30, 2011 |
| Last update date |
Mar 05, 2012 |
| Contact name |
FANG FANG |
| E-mail(s) |
[email protected]
|
| Phone |
646-8882783
|
| Fax |
646-8882595
|
| Organization name |
Memorial Sloan-Kettering Cancer Center
|
| Department |
The Human Oncology and Pathogenesis Program
|
| Lab |
Timothy Chan
|
| Street address |
1275 York Avenue
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platform ID |
GPL571 |
| Series (2) |
| GSE30336 |
Expression analysis of 52 glioma clinical samples (36 CIMP+ and 16 CIMP-) and 6 cell line samples |
| GSE30339 |
IDH1 Mutation is a Master Regulator of Epigenomic Remodeling and is Sufficient to Establish the Glioma Hypermethylator Phenotype |
|
